ArticleProceedings of the National Academy of Sciences of the United States of America2012
Dynamics of inherently bounded histone modification domains.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers, 1 of them a synthesis that pooled it.
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Who cites it
38 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Nucleosome Turnover Regulates Histone Methylation Patterns over the Genome.Molecular cell · 2019Pooled it
- Distinct H3K9me3 heterochromatin maintenance dynamics govern different gene programmes and repeats in pluripotent cells.Nature cell biology · 2024Article
- The H3.3K36M oncohistone disrupts the establishment of epigenetic memory through loss of DNA methylation.Molecular cell · 2024Article
- Stalling out chromatin machinery-Oncohistone mutation disrupts heterochromatin memory.Molecular cell · 2024Article
- Distinct H3K9me3 heterochromatin maintenance dynamics govern different gene programs and repeats in pluripotent cells.bioRxiv : the preprint server for biology · 2024Article
- Role of diffusion and reaction of the constituents in spreading of histone modification marks.PLoS computational biology · 2024Article
- Two-way feedback between chromatin compaction and histone modification state explainsProceedings of the National Academy of Sciences of the United States of America · 2024Article
- Design principles of 3D epigenetic memory systems.Science (New York, N.Y.) · 2023Article
- The H3.3 K36M oncohistone disrupts the establishment of epigenetic memory through loss of DNA methylation.bioRxiv : the preprint server for biology · 2023Article
- Single-cell chromatin state transitions during epigenetic memory formation.bioRxiv : the preprint server for biology · 2023Article
- Relationship between lysine methyltransferase levels and heterochromatin gene repression in living cells and in silico.PNAS nexus · 2023Article
- Chromatin dynamics controls epigenetic domain formation.Biophysical journal · 2022Article
- Dissecting cell fate dynamics in pediatric glioblastoma through the lens of complex systems and cellular cybernetics.Biological cybernetics · 2022Review
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- Live analysis of position-effect variegation inProceedings of the National Academy of Sciences of the United States of America · 2022Article
- Article
- DNA sequence-dependent formation of heterochromatin nanodomains.Nature communications · 2022Article
- High fidelity epigenetic inheritance: Information theoretic model predicts threshold filling of histone modifications post replication.PLoS computational biology · 2022Article
- Impact of chromosomal organization on epigenetic drift and domain stability revealed by physics-based simulations.Biophysical journal · 2021Article
- Chromosome Structural Mechanics Dictates the Local Spreading of Epigenetic Marks.Biophysical journal · 2020Article
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Authors and funding
2 authors.
Funding
Abstract
A central goal of chromatin biology is to reveal how posttranslational histone marks modulate gene expression; however, relatively little is known about the spatial or temporal dynamics of these marks. We previously showed that a dynamic model of histone mark nucleation, propagation, and turnover fits the mean enrichment profiles from 99% of noncentromeric histone H3 lysine 9 trimethylation (H3K9me3) domains in mouse embryonic stem cells without the need for boundary or insulator elements. Here we report the full details of this "inherently bounded" model of histone modification dynamics and describe several dynamic features of the model using H3K9me3 as a paradigm. By analyzing the kinetic and structural constraints that drive formation of inherently bounded domains, we find that such domains are optimized when the rates of marking and turnover are comparable. Additionally, we find that to establish such domains, propagation of the histone marks must occur primarily through local contacts.
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